data_2A3L # _model_server_result.job_id tmB2NFUdPCOERs7PJzAkFw _model_server_result.datetime_utc '2024-10-25 20:22:42' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 2a3l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":841}' # _entry.id 2A3L # _exptl.entry_id 2A3L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 364.248 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "COFORMYCIN 5'-PHOSPHATE" _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 2A3L _cell.length_a 131.325 _cell.length_b 131.325 _cell.length_c 208.254 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2A3L _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA,PQS dimeric 2 author_and_software_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E 1 1,2 A,B,C,D,E 2 1,3,2,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_554 y,x,-z-1/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 -69.418 3 'crystal symmetry operation' 4_445 -x-1,-y-1,z -1 0 0 0 -1 0 0 0 1 -65.6625 -113.730786 0 4 'crystal symmetry operation' 10_444 -y-1,-x-1,-z-1/3 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 -65.6625 -113.730786 -69.418 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A NE2 HIS 253 A HIS 391 1_555 B ZN ZN . A ZN 840 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc2 A NE2 HIS 255 A HIS 393 1_555 B ZN ZN . A ZN 840 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc3 A NE2 HIS 521 A HIS 659 1_555 B ZN ZN . A ZN 840 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc4 A OD2 ASP 598 A ASP 736 1_555 B ZN ZN . A ZN 840 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc5 B ZN ZN . A ZN 840 1_555 D N4 CF5 . A CF5 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? metalc ? metalc6 B ZN ZN . A ZN 840 1_555 D O8 CF5 . A CF5 841 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.814 ? # _chem_comp.formula 'C11 H17 N4 O8 P' _chem_comp.formula_weight 364.248 _chem_comp.id CF5 _chem_comp.mon_nstd_flag . _chem_comp.name "COFORMYCIN 5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O1P P CF5 doub 70 n n P O3P CF5 sing 71 n n P O2P CF5 sing 72 n n P O5S CF5 sing 73 n n O3P H3P CF5 sing 74 n n O2P H2P CF5 sing 75 n n O5S C5S CF5 sing 76 n n C5S C4S CF5 sing 77 n n C5S H5S1 CF5 sing 78 n n C5S H5S2 CF5 sing 79 n n C4S C3S CF5 sing 80 n n C4S O4S CF5 sing 81 n n C4S H4S CF5 sing 82 n n C3S O3S CF5 sing 83 n n C3S C2S CF5 sing 84 n n C3S H3S CF5 sing 85 n n O3S H1 CF5 sing 86 n n O4S C1S CF5 sing 87 n n C1S C2S CF5 sing 88 n n C1S N3 CF5 sing 89 n n C1S H1S CF5 sing 90 n n C2S O2S CF5 sing 91 n n C2S H2S CF5 sing 92 n n O2S H3 CF5 sing 93 n n N3 C2 CF5 sing 94 n y N3 C10 CF5 sing 95 n y C2 N1 CF5 doub 96 n y C2 H2 CF5 sing 97 n n C10 N4 CF5 sing 98 n n C10 C9 CF5 doub 99 n y N4 C5 CF5 doub 100 n n C5 N6 CF5 sing 101 n n C5 H5 CF5 sing 102 n n N6 C7 CF5 sing 103 n n N6 HN6 CF5 sing 104 n n C7 C8 CF5 sing 105 n n C7 H71 CF5 sing 106 n n C7 H72 CF5 sing 107 n n C8 C9 CF5 sing 108 n n C8 O8 CF5 sing 109 n n C8 H8 CF5 sing 110 n n C9 N1 CF5 sing 111 n y O8 HO8 CF5 sing 112 n n # _atom_sites.entry_id 2A3L _atom_sites.fract_transf_matrix[1][1] 0.007615 _atom_sites.fract_transf_matrix[1][2] 0.004396 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008793 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.004802 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 ZN A 1 840 840 ZN ZN . C 3 PO4 A 1 842 842 PO4 PO4 . D 4 CF5 A 1 841 841 CF5 CF5 . E 5 HOH A 1 843 843 HOH HOH . E 5 HOH A 2 844 844 HOH HOH . E 5 HOH A 3 845 845 HOH HOH . E 5 HOH A 4 846 846 HOH HOH . E 5 HOH A 5 847 847 HOH HOH . E 5 HOH A 6 848 848 HOH HOH . E 5 HOH A 7 849 849 HOH HOH . E 5 HOH A 8 850 850 HOH HOH . E 5 HOH A 9 851 851 HOH HOH . E 5 HOH A 10 852 852 HOH HOH . E 5 HOH A 11 853 853 HOH HOH . E 5 HOH A 12 854 854 HOH HOH . E 5 HOH A 13 855 855 HOH HOH . E 5 HOH A 14 856 856 HOH HOH . E 5 HOH A 15 857 857 HOH HOH . E 5 HOH A 16 858 858 HOH HOH . E 5 HOH A 17 859 859 HOH HOH . E 5 HOH A 18 860 860 HOH HOH . E 5 HOH A 19 861 861 HOH HOH . E 5 HOH A 20 862 862 HOH HOH . E 5 HOH A 21 863 863 HOH HOH . E 5 HOH A 22 864 864 HOH HOH . E 5 HOH A 23 865 865 HOH HOH . E 5 HOH A 24 866 866 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O1P CF5 . . . D 4 -13.565 -36.906 -17.466 1 75.9 ? O1P CF5 841 A 1 HETATM 2 P P CF5 . . . D 4 -14.125 -38.101 -16.506 1 75.9 ? P CF5 841 A 1 HETATM 3 O O3P CF5 . . . D 4 -15.391 -39.086 -17.414 1 75.9 ? O3P CF5 841 A 1 HETATM 4 O O2P CF5 . . . D 4 -12.61 -38.998 -15.925 1 75.9 ? O2P CF5 841 A 1 HETATM 5 O O5S CF5 . . . D 4 -14.895 -37.457 -15.245 1 75.9 ? O5S CF5 841 A 1 HETATM 6 C C5S CF5 . . . D 4 -16.28 -37.724 -14.991 1 75.9 ? C5S CF5 841 A 1 HETATM 7 C C4S CF5 . . . D 4 -16.849 -36.666 -14.082 1 75.9 ? C4S CF5 841 A 1 HETATM 8 C C3S CF5 . . . D 4 -17.494 -37.26 -12.826 1 75.9 ? C3S CF5 841 A 1 HETATM 9 O O3S CF5 . . . D 4 -16.768 -36.864 -11.687 1 75.9 ? O3S CF5 841 A 1 HETATM 10 O O4S CF5 . . . D 4 -17.867 -35.834 -14.722 1 75.9 ? O4S CF5 841 A 1 HETATM 11 C C1S CF5 . . . D 4 -19.165 -35.973 -14.134 1 75.9 ? C1S CF5 841 A 1 HETATM 12 C C2S CF5 . . . D 4 -18.91 -36.729 -12.862 1 75.9 ? C2S CF5 841 A 1 HETATM 13 O O2S CF5 . . . D 4 -19.142 -35.874 -11.77 1 75.9 ? O2S CF5 841 A 1 HETATM 14 N N3 CF5 . . . D 4 -20.087 -36.908 -14.821 1 75.9 ? N3 CF5 841 A 1 HETATM 15 C C2 CF5 . . . D 4 -19.871 -37.674 -15.932 1 75.9 ? C2 CF5 841 A 1 HETATM 16 C C10 CF5 . . . D 4 -21.347 -37.21 -14.483 1 75.9 ? C10 CF5 841 A 1 HETATM 17 N N4 CF5 . . . D 4 -22.143 -36.738 -13.417 1 75.9 ? N4 CF5 841 A 1 HETATM 18 C C5 CF5 . . . D 4 -22.905 -37.415 -12.69 1 75.9 ? C5 CF5 841 A 1 HETATM 19 N N6 CF5 . . . D 4 -23.113 -38.696 -12.803 1 75.9 ? N6 CF5 841 A 1 HETATM 20 C C7 CF5 . . . D 4 -23.265 -39.452 -13.978 1 75.9 ? C7 CF5 841 A 1 HETATM 21 C C8 CF5 . . . D 4 -23.18 -38.595 -15.223 1 75.9 ? C8 CF5 841 A 1 HETATM 22 C C9 CF5 . . . D 4 -21.892 -38.171 -15.392 1 75.9 ? C9 CF5 841 A 1 HETATM 23 N N1 CF5 . . . D 4 -20.939 -38.428 -16.274 1 75.9 ? N1 CF5 841 A 1 HETATM 24 O O8 CF5 . . . D 4 -23.983 -37.357 -15.033 1 75.9 ? O8 CF5 841 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 240 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 24 #